Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FH07_RS20520 Genome accession   NZ_CP008697
Coordinates   4152796..4153605 (-) Length   269 a.a.
NCBI ID   WP_001305093.1    Uniprot ID   -
Organism   Escherichia coli strain ST648 isolate Pleural Effusion of Patients with Empyema Thoracis     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4147796..4158605
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FH07_RS20505 (FH07_20685) gspD 4149253..4151313 (-) 2061 WP_001468189.1 type II secretion system secretin GspD -
  FH07_RS20510 (FH07_20690) gspC 4151343..4152302 (-) 960 WP_024189718.1 type II secretion system protein GspC -
  FH07_RS20515 (FH07_20695) gspS2 4152320..4152730 (-) 411 WP_001298257.1 type II secretion system pilot lipoprotein GspS-beta -
  FH07_RS20520 (FH07_20700) pilD 4152796..4153605 (-) 810 WP_001305093.1 prepilin peptidase PppA Machinery gene
  FH07_RS20525 (FH07_20705) sslE 4153735..4158300 (-) 4566 WP_016247683.1 lipoprotein metalloprotease SslE -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29448.04 Da        Isoelectric Point: 8.3801

>NTDB_id=108237 FH07_RS20520 WP_001305093.1 4152796..4153605(-) (pilD) [Escherichia coli strain ST648 isolate Pleural Effusion of Patients with Empyema Thoracis]
MLFDVFQQYSAGMPILATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSTQSKINLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGGWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=108237 FH07_RS20520 WP_001305093.1 4152796..4153605(-) (pilD) [Escherichia coli strain ST648 isolate Pleural Effusion of Patients with Empyema Thoracis]
ATGCTTTTTGATGTTTTTCAGCAATACTCCGCGGGGATGCCCATACTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTACGC
AGTCAAAAATAAACCTGGCGCTGCCACGCTCGCACTGTCCGCATTGCCAGCAGACCATCCGCGTTCGTGACAATATTCCG
CTGCTCTCATGGTTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTGTGGCCAGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATAACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACC
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACGCTACAAGACGCAGTTACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTACTTTTCGCTG
CGTTAGGTGGCTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
ATTGTTTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(130-239)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-118)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilD Vibrio cholerae strain A1552

45.318

99.257

0.45
  pilD Vibrio campbellii strain DS40M4

41.328

100

0.416
  pilD Acinetobacter nosocomialis M2

38.113

98.513

0.375
  pilD Neisseria gonorrhoeae MS11

39.841

93.309

0.372
  pilD Acinetobacter baumannii D1279779

37.736

98.513

0.372

Multiple sequence alignment